RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

General features for molecule PDB_00627 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00627 Molecule name [?]: MODEL FOR THIOSTREPTON ANTIBIOTIC BINDING TO L11 SUBSTRATE FROM 50S RIBOSOMAL RNA Source [?]: RCSB Protein Data Bank Source ID [?]: 1OLN Reference [?]: G.LENTZEN,R.KLINCK,N.MATASSOVA,F.ABOUL-ELA, A.I.MURCHIE. STRUCTURAL BASIS FOR CONTRASTING ACTIVITIES OF RIBOSOME BINDING THIAZOLE ANTIBIOTICS.. CHEM.BIOL. V. 10 769 2003 ASTM CBOLE2 UK ISSN 1074-5521 Type [?]: Other Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: THERMOTOGA MARITIMA Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 58 Fragments used [?]: Yes Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_01146 Number of domains [?]: 1 Number of unpaired bases [?]: 24 Number of paired bases [?]: 34

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 17 Maximum length of a stem [?]: 6 Average length of a stem [?]: 4.25 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -3.2 Average estimated free energy [?]: -6.57 Minimum estimated free energy [?]: -10.9

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 7 Average number of free bases in hairpin loops [?]: 5.5 Minimum number of free bases in hairpin loop [?]: 4

Bulge loop features Number of bulge loops [?]: 0 Maximum number of free bases in bulge loops [?]: N/A Average number of free bases in bulge loops [?]: N/A Minimum number of free bases in bulge loop [?]: N/A

Internal loop features Number of internal loops [?]: 1 Maximum number of free bases in internal loops: 2 Average number of free bases in internal loops: 2 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 0 Average internal loop absolute asymmetry: 0 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 1 Average internal loop relative asymmetry: 1 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 8 Average number of free bases in multi-loops: 3 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 8 Average multi-loop absolute asymmetry: 5.33 Minimum multi-loop absolute asymmetry: 1 Maximum multi-loop relative asymmetry: 8 Average multi-loop relative asymmetry: 2.03 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 3 Average number of branches in multi-loops: 3 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 3 Total number of AG non-canonical base pairs: 2 Total number of UU non-canonical base pairs: 1

Pseudoknot features

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